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nf-core / taxprofiler

Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data
https://nf-co.re/taxprofiler
MIT License
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Profiler: MetaMaps #70

Open sofstam opened 2 years ago

sofstam commented 2 years ago

Description of feature

MetaMaps is tool specifically developed for the analysis of long-read (PacBio/Oxford Nanopore) metagenomic datasets. It simultaenously carries out read assignment and sample composition estimation.It is faster than classical exact alignment-based approaches, and its output is more information-rich than that of kmer-spectra-based methods. For example, each MetaMaps alignment comes with an approximate alignment location, an estimated alignment identity and a mapping quality. The approximate mapping algorithm employed by MetaMaps is based on MashMap. MetaMaps adds a mapping quality model and EM-based estimation of sample composition.

https://www.nature.com/articles/s41467-019-10934-2

Work in progress in nf-core/modules: MetaMaps

jfy133 commented 2 years ago

Waiting for a bug fix from the developer, will bump to next release